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This page was generated on 2025-11-11 12:03 -0500 (Tue, 11 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4902
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4638
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 210/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-11-10 13:45 -0500 (Mon, 10 Nov 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for biodbChebi on kjohnson3

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.16.0.tar.gz
StartedAt: 2025-11-10 18:58:46 -0500 (Mon, 10 Nov 2025)
EndedAt: 2025-11-10 18:59:15 -0500 (Mon, 10 Nov 2025)
EllapsedTime: 29.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.16.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-11-10 18:59:06.418][biodb::testContext]
biodb.INFO [2025-11-10 18:59:06.420][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:06.420][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-10 18:59:06.420][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:06.421][biodb::testContext]
biodb.INFO [2025-11-10 18:59:06.423][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:06.424][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:06.427][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:06.428][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-10 18:59:06.428][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-10 18:59:06.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.429][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-10 18:59:06.435][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-10 18:59:06.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.437][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-10 18:59:06.437][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-10 18:59:06.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.438][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-10 18:59:06.439][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-10 18:59:06.439][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-10 18:59:06.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.440][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-10 18:59:06.440][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-10 18:59:06.440][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-10 18:59:06.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.441][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-10 18:59:06.442][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-10 18:59:06.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.443][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-10 18:59:06.443][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-10 18:59:06.443][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-10 18:59:06.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.444][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-10 18:59:06.444][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-10 18:59:06.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.450][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-10 18:59:06.450][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-10 18:59:06.450][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-10 18:59:06.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.451][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:06.452][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-10 18:59:06.452][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-10 18:59:06.452][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-10 18:59:06.453][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-10 18:59:06.453][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-10 18:59:06.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.454][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-10 18:59:06.454][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-10 18:59:06.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.455][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-10 18:59:06.455][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-10 18:59:06.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.456][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-10 18:59:06.457][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-10 18:59:06.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.458][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-10 18:59:06.458][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-10 18:59:06.458][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-10 18:59:06.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.459][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:06.459][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-10 18:59:06.466][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-10 18:59:06.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.467][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-10 18:59:06.467][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-10 18:59:06.468][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-10 18:59:06.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.470][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-10 18:59:06.482][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.487][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-10 18:59:06.487][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.488][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:06.488][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.488][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.488][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.489][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.489][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:06.489][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:06.489][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.490][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-10 18:59:06.490][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:06.490][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:06.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.492][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:06.492][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.493][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.493][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.493][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:06.494][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:06.494][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.494][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.494][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-10 18:59:06.495][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.495][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:06.496][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.496][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:06.496][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.496][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.497][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.497][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.497][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:06.497][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:06.498][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.498][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-10 18:59:06.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:06.499][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:06.500][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.500][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.500][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:06.500][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.501][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.501][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.501][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.501][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:06.502][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:06.502][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.502][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.502][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-10 18:59:06.503][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.503][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-10 18:59:06.504][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.504][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:06.504][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.504][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.505][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.505][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.505][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:06.505][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:06.506][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.506][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-10 18:59:06.506][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:06.510][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.510][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.511][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.511][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:06.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.511][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.512][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:06.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.512][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.513][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.513][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:06.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:06.514][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.514][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.514][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-10 18:59:06.515][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.515][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:06.515][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.516][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:06.516][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.516][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.516][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.517][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.517][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:06.517][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:06.518][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.518][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-10 18:59:06.518][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:06.518][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.519][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.519][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.519][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:06.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.520][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:06.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.521][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.521][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.521][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:06.521][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:06.522][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.522][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:06.524][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:06.524][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.543][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-10 18:59:06.545][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-10 18:59:06.546][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-10 18:59:06.546][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-10 18:59:06.547][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:06.547][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-10 18:59:06.547][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:06.548][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:06.548][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-10 18:59:06.549][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-10 18:59:06.549][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:06.549][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-10 18:59:06.550][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:06.550][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:06.550][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-10 18:59:06.551][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-10 18:59:06.551][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-10 18:59:06.552][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-10 18:59:06.552][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:06.552][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-10 18:59:06.553][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-10 18:59:06.553][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-10 18:59:06.554][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-10 18:59:06.554][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-10 18:59:06.554][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-10 18:59:06.555][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-10 18:59:06.555][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-10 18:59:06.556][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-10 18:59:06.556][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-10 18:59:06.556][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-10 18:59:06.557][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-10 18:59:06.557][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-10 18:59:06.557][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-10 18:59:06.561][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-10 18:59:06.561][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-10 18:59:06.562][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-10 18:59:06.562][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-10 18:59:06.563][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-10 18:59:06.563][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-10 18:59:06.563][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-10 18:59:06.564][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-10 18:59:06.564][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-10 18:59:06.565][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-10 18:59:06.565][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-10 18:59:06.566][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-10 18:59:06.566][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-10 18:59:06.566][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-10 18:59:06.567][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-10 18:59:06.567][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-10 18:59:06.568][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-10 18:59:06.568][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-10 18:59:06.568][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-10 18:59:06.569][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-10 18:59:06.569][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-10 18:59:06.569][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-10 18:59:06.570][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-10 18:59:06.570][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-10 18:59:06.571][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-10 18:59:06.571][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-10 18:59:06.571][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-10 18:59:06.572][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-10 18:59:06.572][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-10 18:59:06.572][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-10 18:59:06.573][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-10 18:59:06.573][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-10 18:59:06.574][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-10 18:59:06.574][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:06.574][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:06.575][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-10 18:59:06.575][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-10 18:59:06.576][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-10 18:59:06.576][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-10 18:59:06.576][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-10 18:59:06.577][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-10 18:59:06.577][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-10 18:59:06.577][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-10 18:59:06.578][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-10 18:59:06.578][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-10 18:59:06.579][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-10 18:59:06.579][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-10 18:59:06.579][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-10 18:59:06.580][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-10 18:59:06.580][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-10 18:59:06.582][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-10 18:59:06.583][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:06.584][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:06.585][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.585][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:06.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:06.618][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:06.622][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-10 18:59:06.622][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.623][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.623][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.623][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:06.624][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.624][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.624][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.624][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-10 18:59:06.625][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-10 18:59:06.625][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:06.625][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-10 18:59:06.626][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-10 18:59:06.627][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:06.627][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:06.627][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:06.627][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:06.627][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-10 18:59:06.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.628][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:06.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:06.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:06.629][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:06.629][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-10 18:59:06.629][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-10 18:59:06.629][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:06.630][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:06.630][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:06.630][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-10 18:59:06.630][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-10 18:59:06.632][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:06.633][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:06.633][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-10 18:59:06.634][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:06.634][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:06.635][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:06.646][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-10 18:59:06.653][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-10 18:59:06.658][biodb::testThat]
biodb.INFO [2025-11-10 18:59:06.658][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-10 18:59:06.658][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:06.659][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:06.661][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-10 18:59:06.662][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:06.663][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:06.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:06.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:06.676][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.676][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.677][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.687][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.687][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.688][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.697][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.698][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.699][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.700][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.700][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.702][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.703][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.704][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.704][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.705][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.705][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.706][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:06.706][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.707][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.707][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:06.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.708][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.709][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.709][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.711][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.711][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.711][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:06.713][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.714][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.714][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:06.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.715][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.715][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.716][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:06.740][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-10 18:59:06.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.755][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-10 18:59:06.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-10 18:59:06.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.756][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-10 18:59:06.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-10 18:59:06.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.757][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-10 18:59:06.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-10 18:59:06.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-10 18:59:06.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-10 18:59:06.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.806][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.807][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.824][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.826][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.827][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.827][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.827][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.831][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.834][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.835][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.835][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.842][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.843][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.850][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.851][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.851][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.855][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.856][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.857][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.858][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.859][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.859][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.859][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.863][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.866][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.867][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.869][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.869][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.869][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.873][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.874][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.875][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.876][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.877][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.877][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.877][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.883][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.884][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.884][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.885][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.892][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.893][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.893][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.900][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.901][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.901][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.908][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.908][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.908][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.910][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.910][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.911][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.913][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.913][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.915][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.916][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.917][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.918][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.918][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.920][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.920][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.920][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.922][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.922][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.923][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.924][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.925][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.925][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.927][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.927][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.927][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.929][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.929][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.930][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.931][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.932][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.932][ef$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:06.935][biodb::testThat]
biodb.INFO [2025-11-10 18:59:06.935][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-10 18:59:06.935][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:06.936][biodb::testThat]
biodb.DEBUG[2025-11-10 18:59:06.940][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-10 18:59:06.944][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:06.945][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:06.947][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-10 18:59:06.948][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:06.958][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:06.959][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:06.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:06.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:06.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:06.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:06.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:06.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:06.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:06.963][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.964][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.964][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:06.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:06.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.971][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.972][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.972][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.973][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:06.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:06.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.974][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.974][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.974][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:06.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:06.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.976][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.976][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.977][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:06.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:06.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.979][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:06.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.980][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.981][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.981][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.982][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:06.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.983][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:06.983][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.983][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.984][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:06.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:06.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.985][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.985][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.986][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:06.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.987][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.988][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.988][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:06.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:06.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.990][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:06.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.991][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.991][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:06.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:06.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.993][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.993][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.993][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:06.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:06.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:06.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:06.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:06.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:07.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:07.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:07.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:07.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:07.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:07.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:07.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:07.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:07.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:07.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:07.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:07.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:07.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:07.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:07.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:07.008][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-10 18:59:07.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-10 18:59:07.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-10 18:59:07.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-10 18:59:07.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-10 18:59:07.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-10 18:59:07.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-10 18:59:07.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:07.015][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.015][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-10 18:59:07.016][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:07.016][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:07.017][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:07.017][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:07.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.018][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:07.018][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-10 18:59:07.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:07.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:07.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:07.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:07.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:07.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:07.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:07.032][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-10 18:59:07.034][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-10 18:59:07.044][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:07.046][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-10 18:59:07.047][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:07.054][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:07.064][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:07.065][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:07.066][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:07.066][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-10 18:59:07.071][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:07.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:07.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.072][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.072][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.073][ef$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:07.074][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.075][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-10 18:59:07.075][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:07.075][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:07.086][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:07.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:07.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.087][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:07.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:07.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:07.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:07.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:07.107][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:07.108][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:07.109][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:07.109][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-10 18:59:07.115][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.115][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-10 18:59:07.115][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:07.116][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:07.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:07.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:07.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:07.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.132][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.133][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.134][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-10 18:59:07.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-10 18:59:07.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.135][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-10 18:59:07.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-10 18:59:07.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:07.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:07.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:07.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:07.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:07.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:07.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.148][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.149][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-10 18:59:07.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.150][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-10 18:59:07.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-10 18:59:07.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:07.151][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-10 18:59:07.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-10 18:59:07.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:07.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:07.155][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.155][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-10 18:59:07.155][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:07.156][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.158][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.159][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-10 18:59:07.159][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:07.159][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.161][biodb::testThat]
biodb.INFO [2025-11-10 18:59:07.162][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-10 18:59:07.162][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:07.162][biodb::testThat]
biodb.DEBUG[2025-11-10 18:59:07.163][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-10 18:59:08.001][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-10 18:59:08.590][biodb::testThat]
biodb.INFO [2025-11-10 18:59:08.590][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-10 18:59:08.590][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:08.591][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:08.593][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.593][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.594][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.594][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.594][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.595][ef$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:08.595][biodb::testThat]
biodb.INFO [2025-11-10 18:59:08.596][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-10 18:59:08.596][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:08.596][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:08.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:08.644][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:08.645][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:08.647][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:08.647][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:08.678][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:08.679][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:08.681][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:08.681][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-10 18:59:08.686][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-10 18:59:08.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-10 18:59:08.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:08.697][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:08.698][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:08.699][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-10 18:59:08.699][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:08.704][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-10 18:59:08.722][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:08.722][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:08.724][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-10 18:59:08.724][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.724][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:08.725][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:08.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:08.729][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.730][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.730][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.732][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:08.732][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:08.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.733][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.733][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:08.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:08.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.734][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:08.735][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:08.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.735][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:08.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:08.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.737][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:08.737][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:08.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.738][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:08.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:08.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.739][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.739][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.741][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.742][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.742][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.742][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:08.743][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.743][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:08.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.745][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.745][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.745][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.750][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.750][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.751][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.752][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.752][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.753][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.753][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:08.755][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:08.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.755][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.756][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:08.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:08.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.767][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-10 18:59:08.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:08.774][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:08.775][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:08.776][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-10 18:59:08.777][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:08.797][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-10 18:59:08.797][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:08.797][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:08.799][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-10 18:59:08.799][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.800][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:08.800][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:08.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:08.805][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.806][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.806][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.808][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:08.808][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:08.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.809][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.809][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:08.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:08.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.810][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:08.810][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:08.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.811][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:08.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:08.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.813][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:08.813][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:08.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.813][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:08.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:08.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.815][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.817][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.818][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.818][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.818][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:08.819][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.819][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.820][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:08.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.821][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.821][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.825][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.827][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.827][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.827][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.828][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.829][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.829][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.830][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.831][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:08.832][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:08.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.832][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.832][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:08.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.844][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-10 18:59:08.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:08.854][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:08.855][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:08.856][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:08.857][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:08.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:08.870][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-10 18:59:08.871][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:08.871][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:08.872][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-10 18:59:08.873][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.873][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:08.874][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:08.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:08.879][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.880][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.880][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.882][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:08.882][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:08.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.882][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.883][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:08.883][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:08.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.884][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.884][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:08.884][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:08.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.885][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.885][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.886][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.886][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.887][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.887][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.887][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:08.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.888][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.889][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.889][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.889][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.890][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.890][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.890][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.892][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.892][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.893][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.893][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.894][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:08.894][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:08.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.895][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.909][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-10 18:59:08.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:08.919][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-10 18:59:08.919][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:08.919][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:08.921][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-10 18:59:08.922][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.922][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:08.923][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:08.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:08.928][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.928][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.929][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.930][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:08.930][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:08.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.931][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.931][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:08.932][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:08.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.932][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:08.933][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:08.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.934][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.934][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.934][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.938][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.938][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.939][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.939][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.940][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:08.940][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.940][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.941][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.942][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.942][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.942][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.943][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.944][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.945][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.945][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.946][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:08.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:08.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.947][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:08.947][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:08.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.948][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:08.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.964][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-10 18:59:08.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:08.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:08.974][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-10 18:59:08.974][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:08.978][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:08.980][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-10 18:59:08.980][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:08.981][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:08.981][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:08.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:08.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:08.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:08.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:08.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:08.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:08.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:08.987][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.987][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.988][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:08.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:08.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.989][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:08.989][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:08.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.990][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.990][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:08.991][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:08.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.991][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.992][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:08.992][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:08.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.992][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.993][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:08.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.994][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.994][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.994][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:08.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.995][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.995][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:08.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:08.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.996][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.996][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.997][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:08.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.997][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.997][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.998][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:08.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:08.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:08.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:08.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.000][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.000][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.001][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.001][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.002][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.002][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.004][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.020][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-10 18:59:09.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.030][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-10 18:59:09.031][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.031][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.033][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-10 18:59:09.033][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.034][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.034][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.038][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.039][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.039][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.041][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.041][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.042][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.042][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.043][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.044][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.044][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.045][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.046][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.047][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.048][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.049][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.049][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.051][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.051][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.052][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.052][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.053][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.053][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.064][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.064][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.066][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.066][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.066][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.068][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.068][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.069][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.069][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.070][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.071][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.071][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.072][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.073][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.073][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.074][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.086][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-10 18:59:09.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.093][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-10 18:59:09.094][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.094][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.096][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-10 18:59:09.096][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.097][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.106][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.107][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.107][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.109][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.109][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.110][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.110][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.111][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.111][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.112][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.112][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.113][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.114][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.116][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.117][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.122][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.122][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.126][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.126][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.128][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.128][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.128][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.129][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.130][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.130][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.131][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.132][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.133][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.133][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.135][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.135][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.136][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.136][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.137][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.137][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.138][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.138][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.153][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-10 18:59:09.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.161][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-10 18:59:09.162][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.162][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.164][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-10 18:59:09.164][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.164][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.165][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.169][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.172][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.172][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.173][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.173][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.174][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.174][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.177][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.178][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.179][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.179][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.184][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.185][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.186][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.186][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.186][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.187][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.189][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.191][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.191][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.193][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.193][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.194][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.197][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.198][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.199][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.199][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.211][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-10 18:59:09.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.218][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-10 18:59:09.218][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.219][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.222][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-10 18:59:09.223][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.224][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.224][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.229][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.229][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.229][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.231][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.231][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.232][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.233][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.233][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.234][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.234][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.235][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.236][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.236][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.238][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.238][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.240][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.240][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.241][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.241][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.242][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.243][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.244][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.245][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.246][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.247][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.248][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.248][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.248][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.249][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.250][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.250][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.265][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-10 18:59:09.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.272][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-10 18:59:09.272][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.273][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.274][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-10 18:59:09.274][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.275][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.275][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.280][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.280][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.281][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.282][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.282][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.283][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.284][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.285][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.285][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.287][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.287][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.289][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.289][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.290][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.295][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.296][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.297][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.297][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.298][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.299][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.299][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.300][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.301][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.301][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.302][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.303][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.304][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.304][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.305][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.306][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.306][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.306][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.307][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.318][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-10 18:59:09.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.327][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-10 18:59:09.328][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.329][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.330][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-10 18:59:09.331][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.331][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.331][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.336][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.336][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.337][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.338][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.338][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.339][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.339][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.340][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.341][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.342][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.343][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.343][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.343][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.345][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.346][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.347][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.347][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.348][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.348][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.349][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.349][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.349][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.350][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.351][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.351][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.353][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.353][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.354][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.355][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.355][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.356][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.357][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.357][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.358][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.358][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.374][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-10 18:59:09.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.382][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-10 18:59:09.382][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.382][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.384][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-10 18:59:09.384][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.385][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.385][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.389][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.390][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.390][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.392][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.392][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.392][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.394][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.394][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.395][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.395][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.396][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.397][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.401][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.402][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.404][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.405][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.405][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.405][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.406][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.407][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.407][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.408][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.409][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.410][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.412][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.412][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.413][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.414][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.414][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.415][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.428][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-10 18:59:09.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.438][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-10 18:59:09.438][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.439][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.440][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-10 18:59:09.441][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.441][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.442][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.447][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.447][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.447][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.449][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.450][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.450][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.451][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.452][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.454][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.455][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.456][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.456][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.456][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.457][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.457][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.457][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.458][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.459][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.459][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.460][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.461][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.461][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.462][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.463][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.464][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.464][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.464][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.466][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.466][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.466][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.480][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-10 18:59:09.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.487][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-10 18:59:09.488][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.488][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.489][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-10 18:59:09.490][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.490][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.491][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.495][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.495][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.496][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.497][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.498][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.498][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.499][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.500][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.500][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.500][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.501][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.502][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.502][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.503][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.503][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.503][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.504][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.504][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.504][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.505][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.505][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.508][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.509][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.510][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.511][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.513][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.515][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.515][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.515][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.517][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.517][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.518][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.529][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-10 18:59:09.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.535][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-10 18:59:09.535][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.536][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.537][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-10 18:59:09.538][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.538][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.539][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.547][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.547][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.548][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.549][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.550][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.550][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.550][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.551][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.552][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.552][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.553][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.554][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.554][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.554][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.556][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.556][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.557][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.558][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.558][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.559][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.559][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.559][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.560][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.560][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.561][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.562][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.564][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.565][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.566][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.566][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.567][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.567][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.568][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.569][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.569][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.585][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-10 18:59:09.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.592][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-10 18:59:09.592][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.593][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.594][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-10 18:59:09.595][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.595][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.595][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.600][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.601][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.602][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.603][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.603][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.605][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.605][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.606][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.606][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.607][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.607][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.608][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.610][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.610][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.611][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.615][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.616][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.617][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.617][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.619][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.619][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.619][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.621][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.622][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.623][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.624][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.624][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.625][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.625][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.626][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.626][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.627][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.627][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.639][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-10 18:59:09.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.646][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-10 18:59:09.646][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.647][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.651][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-10 18:59:09.651][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.652][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.652][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.657][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.657][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.658][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.659][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.659][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.660][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.660][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.661][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.662][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.662][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.663][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.664][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.664][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.665][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.665][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.666][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.667][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.668][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.668][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.669][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.669][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.670][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.670][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.670][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.672][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.672][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.674][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.674][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.675][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.675][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.676][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.676][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.677][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.677][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.678][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.679][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.679][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.694][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-10 18:59:09.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.701][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-10 18:59:09.701][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.702][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.703][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-10 18:59:09.704][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.704][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.705][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.709][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.709][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.710][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.711][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.712][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.712][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.713][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.714][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.714][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.714][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.715][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.716][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.716][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.717][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.718][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.721][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.722][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.724][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.724][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.724][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.725][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.725][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.726][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.726][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.727][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.728][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.730][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.731][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.732][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.733][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.733][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.735][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.735][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.735][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.747][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-10 18:59:09.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.758][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-10 18:59:09.759][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.759][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.760][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-10 18:59:09.761][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.761][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.762][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.766][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.766][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.767][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.768][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.768][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.769][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.769][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.770][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.771][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.771][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.771][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.773][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.773][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.773][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.775][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.775][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.776][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.777][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.777][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.778][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.778][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.778][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.779][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.780][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.781][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.781][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.783][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.783][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.783][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.784][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.785][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.785][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.786][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.786][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.787][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.788][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.804][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-10 18:59:09.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.811][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-10 18:59:09.811][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.812][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.813][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-10 18:59:09.813][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.814][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.814][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.819][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.820][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.821][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.821][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.822][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.822][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.823][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.824][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.830][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.831][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.831][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.835][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.836][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.837][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.838][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.838][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.838][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.839][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.839][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.840][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.841][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.841][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.841][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.843][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.844][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.844][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.845][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.845][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.846][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.846][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.847][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.848][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.848][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.861][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-10 18:59:09.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:09.872][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-10 18:59:09.873][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:09.873][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:09.874][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-10 18:59:09.875][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.875][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:09.876][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:09.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.880][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.881][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.881][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.883][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.883][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.884][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.884][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:09.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:09.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.885][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.886][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.886][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:09.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:09.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.888][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.889][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:09.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:09.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.890][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.891][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.891][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:09.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.893][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.893][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:09.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.893][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.894][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.894][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.895][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.895][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:09.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.896][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.897][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:09.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.898][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.899][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.899][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:09.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:09.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.901][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.901][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.902][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.902][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:09.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:09.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.909][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.910][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.910][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.911][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:09.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:09.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:09.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:09.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:09.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.923][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-10 18:59:09.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:09.933][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:09.934][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:09.935][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:09.936][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:09.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:09.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:09.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:09.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:09.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:09.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:09.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:09.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:09.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:09.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:09.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:10.108][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.109][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.110][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-10 18:59:10.110][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:10.112][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.113][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.114][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-10 18:59:10.114][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:10.118][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-10 18:59:10.118][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:10.119][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:10.120][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-10 18:59:10.121][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.121][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:10.121][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:10.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.125][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.128][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.129][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.130][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:10.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:10.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.131][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.132][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:10.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:10.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.133][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:10.133][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:10.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.133][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.134][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:10.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.135][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:10.135][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:10.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.135][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:10.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:10.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.137][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.137][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.139][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:10.139][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:10.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.139][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.140][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:10.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:10.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.141][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:10.141][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.141][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.142][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:10.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.143][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.143][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.143][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.145][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:10.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:10.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.145][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:10.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.147][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:10.147][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:10.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.148][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.148][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:10.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.149][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:10.149][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:10.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.150][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:10.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:10.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.164][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-10 18:59:10.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:10.176][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-10 18:59:10.176][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:10.176][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:10.178][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-10 18:59:10.179][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:10.179][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:10.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.184][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.187][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:10.187][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:10.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.187][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.188][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:10.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:10.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.189][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:10.189][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:10.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.190][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:10.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:10.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.194][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:10.195][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:10.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.196][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:10.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.200][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.200][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:10.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.202][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:10.202][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:10.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.203][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.203][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:10.204][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.204][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.205][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:10.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.206][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.206][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.206][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.208][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:10.208][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:10.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.209][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.209][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:10.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:10.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.210][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:10.210][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:10.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.211][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:10.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:10.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.212][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:10.213][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:10.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.213][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.213][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:10.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:10.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:10.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:10.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.225][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-10 18:59:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:10.239][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.240][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.241][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:10.241][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:10.409][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.410][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.411][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-10 18:59:10.411][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.596][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:10.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:10.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:10.599][biodb::testThat]
biodb.INFO [2025-11-10 18:59:10.600][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-10 18:59:10.600][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:10.600][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:10.601][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-10 18:59:10.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-10 18:59:10.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:10.612][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.613][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.613][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-10 18:59:10.614][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:10.621][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.622][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.623][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-10 18:59:10.623][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.726][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-10 18:59:10.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.733][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.733][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.733][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.734][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.734][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.735][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.735][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.736][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.736][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.737][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.738][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.738][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.745][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-10 18:59:10.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.751][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.751][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.752][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.753][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.753][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.754][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.755][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.756][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.756][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.760][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-10 18:59:10.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.767][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.768][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.768][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.770][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.771][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.771][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.771][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.773][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.773][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.777][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-10 18:59:10.777][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-10 18:59:10.778][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-10 18:59:10.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:10.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.812][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.812][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-10 18:59:10.813][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:10.814][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.815][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.816][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-10 18:59:10.816][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:10.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.847][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-10 18:59:10.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.861][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.861][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.861][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.861][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.862][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.863][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.864][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.864][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.865][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.866][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.869][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-10 18:59:10.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.886][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.887][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.887][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.887][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.888][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.889][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.890][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.893][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.894][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.895][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.898][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-10 18:59:10.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.905][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.905][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.905][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.906][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.907][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.908][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.908][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.910][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.912][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.917][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-10 18:59:10.917][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-10 18:59:10.917][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-10 18:59:10.920][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:10.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:10.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:10.923][biodb::testThat]
biodb.INFO [2025-11-10 18:59:10.923][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-10 18:59:10.923][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:10.923][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:10.924][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-10 18:59:10.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-10 18:59:10.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:10.936][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.937][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.938][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-10 18:59:10.938][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:10.946][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:10.947][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:10.947][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-10 18:59:10.948][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:10.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:10.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:10.961][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-10 18:59:10.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.967][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.967][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.968][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.969][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.969][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.970][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.970][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.971][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.971][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.972][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.975][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-10 18:59:10.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.981][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.981][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.981][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.981][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.982][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.983][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.983][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.984][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.984][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.984][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.984][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.985][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.985][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:10.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.989][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-10 18:59:10.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:10.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:10.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:10.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:10.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:10.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:10.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:10.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.995][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.995][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:10.995][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:10.995][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:10.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.997][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.998][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.998][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.998][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:10.998][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:10.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:10.999][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:10.999][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.003][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-10 18:59:11.003][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-10 18:59:11.003][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-10 18:59:11.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.018][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.019][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.019][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-10 18:59:11.020][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:11.021][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.021][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.022][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-10 18:59:11.022][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.043][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-10 18:59:11.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.049][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.049][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.050][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.050][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.051][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.052][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.052][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.052][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.053][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.053][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.054][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.057][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-10 18:59:11.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.063][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.064][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.064][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.064][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.064][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.065][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.065][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.066][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.066][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.066][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.067][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.068][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.068][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.072][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-10 18:59:11.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.078][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.079][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.079][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.080][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.080][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.081][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.081][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.081][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.082][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.083][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.083][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.087][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-10 18:59:11.087][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-10 18:59:11.087][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-10 18:59:11.090][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:11.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:11.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:11.093][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.093][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-10 18:59:11.093][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.093][biodb::testThat]
biodb.TRACE[2025-11-10 18:59:11.094][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-10 18:59:11.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-10 18:59:11.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.105][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.106][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.107][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-10 18:59:11.107][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-10 18:59:11.117][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.118][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.119][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-10 18:59:11.119][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.134][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-10 18:59:11.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.140][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.140][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.140][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.141][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.142][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.142][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.143][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.143][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.144][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.144][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.144][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.148][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-10 18:59:11.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.154][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.154][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.154][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.154][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.155][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.156][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.156][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.157][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.157][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.157][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.158][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.158][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.158][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.158][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.162][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-10 18:59:11.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.168][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.168][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.168][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.169][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.169][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.170][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.171][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.171][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.172][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.172][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.173][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.176][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-10 18:59:11.176][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-10 18:59:11.177][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-10 18:59:11.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.193][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.194][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.195][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-10 18:59:11.195][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:11.196][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.197][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.197][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-10 18:59:11.198][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.220][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-10 18:59:11.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.227][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.227][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.227][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.227][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.228][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.228][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.228][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.229][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.229][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.230][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.230][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.230][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.230][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.231][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.231][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.235][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-10 18:59:11.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.241][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.241][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.241][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.242][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.242][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.243][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.244][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.244][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.244][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.245][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.245][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.246][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.249][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-10 18:59:11.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.257][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.257][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-10 18:59:11.258][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-10 18:59:11.258][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-10 18:59:11.258][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.259][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.259][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.260][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.260][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.261][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-10 18:59:11.261][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.261][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.262][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.262][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-10 18:59:11.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.266][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-10 18:59:11.266][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-10 18:59:11.266][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-10 18:59:11.273][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:11.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-10 18:59:11.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:11.276][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.276][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-11-10 18:59:11.276][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.276][biodb::testThat]
biodb.DEBUG[2025-11-10 18:59:11.277][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-10 18:59:11.277][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:11.278][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:11.279][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-10 18:59:11.279][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.280][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:11.280][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:11.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.284][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.285][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.285][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.287][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:11.288][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:11.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.288][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.289][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:11.289][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:11.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.289][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.290][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:11.290][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:11.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.291][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.291][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.291][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.292][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.292][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.293][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.293][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:11.294][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.294][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.295][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.295][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.296][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:11.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:11.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.297][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.297][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:11.298][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:11.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.298][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.298][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:11.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:11.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.314][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-10 18:59:11.314][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-10 18:59:11.317][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.317][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-10 18:59:11.318][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.318][biodb::testThat]
biodb.DEBUG[2025-11-10 18:59:11.322][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-10 18:59:11.322][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-10 18:59:11.322][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-10 18:59:11.323][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:11.324][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-10 18:59:11.325][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-10 18:59:11.326][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-10 18:59:11.327][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.327][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-10 18:59:11.327][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:11.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.332][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.332][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.333][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.334][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:11.335][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:11.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.335][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.335][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:11.336][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:11.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.337][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:11.337][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:11.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.337][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.338][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.338][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.338][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.339][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.339][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.339][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.340][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:11.340][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.341][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.341][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.341][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.342][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.342][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:11.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:11.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.343][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.343][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:11.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:11.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.344][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.344][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:11.344][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:11.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.345][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.357][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.357][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.358][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.359][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:11.359][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:11.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.360][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.360][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:11.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:11.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.361][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:11.362][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:11.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.362][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.363][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:11.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:11.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.364][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:11.364][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:11.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.364][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:11.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:11.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.366][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.367][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.368][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.369][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.369][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.370][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:11.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.371][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.371][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:11.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.372][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.373][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.373][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.374][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:11.375][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:11.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.375][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:11.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:11.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.377][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:11.377][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:11.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.377][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.378][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:11.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:11.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.379][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:11.379][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:11.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.379][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.380][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:11.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:11.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:11.392][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.393][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.393][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.394][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:11.395][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:11.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.395][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:11.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:11.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.397][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:11.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:11.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.397][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.398][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:11.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:11.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.399][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:11.399][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:11.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.400][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:11.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:11.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.401][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.402][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:11.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.403][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.403][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.404][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.407][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:11.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.408][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:11.409][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.409][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.409][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:11.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:11.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.410][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.411][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.413][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:11.413][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:11.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.413][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:11.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:11.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.415][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:11.415][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:11.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.416][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.416][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:11.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:11.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.417][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:11.417][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:11.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.418][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:11.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:11.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:11.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:11.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:11.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:11.436][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-10 18:59:11.436][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-10 18:59:11.436][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-10 18:59:11.441][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.441][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-11-10 18:59:11.442][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.442][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.450][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.450][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-11-10 18:59:11.451][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.451][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.453][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.454][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-11-10 18:59:11.454][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.454][biodb::testThat]
sched.DEBUG[2025-11-10 18:59:11.455][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.456][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.458][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-10 18:59:11.459][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-10 18:59:11.463][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:11.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:11.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.464][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:11.464][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.464][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:11.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:11.465][ef$get] fields variable is a list.
biodb.INFO [2025-11-10 18:59:11.465][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.466][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-10 18:59:11.466][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.466][biodb::testThat]
biodb.ERROR[2025-11-10 18:59:11.471][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-10 18:59:11.475][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-10 18:59:11.479][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-10 18:59:11.480][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-10 18:59:11.480][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-10 18:59:11.480][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.481][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.481][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-10 18:59:11.485][biodb::testContext]
biodb.INFO [2025-11-10 18:59:11.485][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:11.486][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-10 18:59:11.486][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:11.486][biodb::testContext]
biodb.INFO [2025-11-10 18:59:11.487][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:11.488][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:11.489][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:11.489][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-10 18:59:11.490][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.491][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-10 18:59:11.491][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.492][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-10 18:59:11.492][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.493][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-10 18:59:11.494][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-10 18:59:11.494][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.495][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-10 18:59:11.495][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-10 18:59:11.495][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.496][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-10 18:59:11.497][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.497][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-10 18:59:11.498][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-10 18:59:11.498][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-10 18:59:11.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.499][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-10 18:59:11.499][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.500][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-10 18:59:11.500][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-10 18:59:11.501][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.502][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:11.502][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-10 18:59:11.502][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-10 18:59:11.502][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-10 18:59:11.503][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-10 18:59:11.503][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-10 18:59:11.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.507][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-10 18:59:11.507][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-10 18:59:11.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.508][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-10 18:59:11.508][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-10 18:59:11.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.509][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-10 18:59:11.509][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.510][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-10 18:59:11.511][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-10 18:59:11.511][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-10 18:59:11.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.512][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:11.512][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-10 18:59:11.518][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-10 18:59:11.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.519][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-10 18:59:11.519][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-10 18:59:11.519][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-10 18:59:11.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.520][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-10 18:59:11.521][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.521][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-10 18:59:11.521][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.522][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.522][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.522][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.523][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.523][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.523][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:11.523][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.524][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.524][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-10 18:59:11.524][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.524][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.525][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.526][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.526][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.526][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.526][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.527][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.527][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.527][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.527][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.528][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.528][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.528][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-10 18:59:11.529][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.529][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:11.529][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.529][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.530][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.530][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.530][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.531][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.531][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:11.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.531][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.532][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-10 18:59:11.532][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.532][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.532][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.533][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.533][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.533][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.533][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:11.533][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:11.533][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.533][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.534][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.534][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.534][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.534][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.535][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.535][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.535][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.535][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.536][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.536][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-10 18:59:11.536][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.537][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-10 18:59:11.537][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.537][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.537][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.538][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.538][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.538][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.538][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:11.539][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.539][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.539][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-10 18:59:11.540][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.540][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.540][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.540][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.541][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.541][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.541][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.541][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.542][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.542][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.542][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.542][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.542][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.543][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.543][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.543][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.544][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-10 18:59:11.544][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.544][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:11.545][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.545][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.545][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.546][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.546][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.546][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.546][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:11.547][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.547][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.547][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-10 18:59:11.547][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.548][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.548][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.548][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.548][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.549][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.549][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.550][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.550][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.550][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.550][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.551][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.551][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.551][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.551][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:11.552][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.570][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-10 18:59:11.571][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-10 18:59:11.571][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-10 18:59:11.572][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-10 18:59:11.572][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:11.572][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-10 18:59:11.573][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:11.573][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:11.574][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-10 18:59:11.574][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-10 18:59:11.574][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:11.575][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-10 18:59:11.575][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:11.576][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:11.576][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-10 18:59:11.576][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-10 18:59:11.577][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-10 18:59:11.577][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-10 18:59:11.577][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:11.578][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-10 18:59:11.578][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-10 18:59:11.579][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-10 18:59:11.579][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-10 18:59:11.579][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-10 18:59:11.580][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-10 18:59:11.580][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-10 18:59:11.580][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-10 18:59:11.581][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-10 18:59:11.581][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-10 18:59:11.582][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-10 18:59:11.582][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-10 18:59:11.582][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-10 18:59:11.583][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-10 18:59:11.583][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-10 18:59:11.583][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-10 18:59:11.584][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-10 18:59:11.584][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-10 18:59:11.585][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-10 18:59:11.585][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-10 18:59:11.585][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-10 18:59:11.586][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-10 18:59:11.586][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-10 18:59:11.586][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-10 18:59:11.587][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-10 18:59:11.587][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-10 18:59:11.588][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-10 18:59:11.588][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-10 18:59:11.588][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-10 18:59:11.589][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-10 18:59:11.589][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-10 18:59:11.589][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-10 18:59:11.590][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-10 18:59:11.590][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-10 18:59:11.591][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-10 18:59:11.591][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-10 18:59:11.591][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-10 18:59:11.592][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-10 18:59:11.592][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-10 18:59:11.592][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-10 18:59:11.593][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-10 18:59:11.596][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-10 18:59:11.596][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-10 18:59:11.597][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-10 18:59:11.597][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-10 18:59:11.597][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-10 18:59:11.598][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-10 18:59:11.598][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:11.598][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:11.599][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-10 18:59:11.599][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-10 18:59:11.600][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-10 18:59:11.600][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-10 18:59:11.600][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-10 18:59:11.601][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-10 18:59:11.601][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-10 18:59:11.601][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-10 18:59:11.602][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-10 18:59:11.602][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-10 18:59:11.603][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-10 18:59:11.603][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-10 18:59:11.603][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-10 18:59:11.604][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-10 18:59:11.604][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-10 18:59:11.604][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-10 18:59:11.605][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:11.605][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:11.605][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.606][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.632][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:11.633][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-10 18:59:11.634][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.634][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.634][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.634][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.635][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.635][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.635][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.635][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-10 18:59:11.636][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-10 18:59:11.636][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.636][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.636][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-10 18:59:11.637][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.638][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.638][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.638][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.638][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-10 18:59:11.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.639][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.639][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.639][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.639][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.640][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-10 18:59:11.640][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-10 18:59:11.640][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.640][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.640][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.641][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-10 18:59:11.641][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-10 18:59:11.641][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:11.642][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:11.642][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-10 18:59:11.642][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:11.643][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:11.643][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:11.644][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-10 18:59:11.646][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-10 18:59:11.646][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.647][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-11-10 18:59:11.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.647][biodb::testThat]
sched.DEBUG[2025-11-10 18:59:11.648][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-10 18:59:11.649][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.651][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-10 18:59:11.651][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:11.652][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.653][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.654][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-10 18:59:11.654][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.658][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.659][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.660][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-10 18:59:11.660][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.674][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.675][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.676][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-10 18:59:11.676][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.680][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.681][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.681][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-10 18:59:11.682][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.689][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.697][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.698][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-10 18:59:11.699][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.703][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.704][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.705][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-10 18:59:11.705][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.710][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.710][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.711][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-10 18:59:11.712][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-10 18:59:11.718][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.718][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-11-10 18:59:11.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.719][biodb::testThat]
sched.DEBUG[2025-11-10 18:59:11.720][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.721][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.722][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-10 18:59:11.722][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-10 18:59:11.727][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.728][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.729][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-10 18:59:11.729][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:11.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:11.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-10 18:59:11.734][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-10 18:59:11.735][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-10 18:59:11.735][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-10 18:59:11.735][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.736][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.736][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-10 18:59:11.738][biodb::testContext]
biodb.INFO [2025-11-10 18:59:11.738][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:11.738][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-10 18:59:11.739][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:11.739][biodb::testContext]
biodb.INFO [2025-11-10 18:59:11.740][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:11.741][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:11.742][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:11.743][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-10 18:59:11.743][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.744][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-10 18:59:11.744][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.745][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-10 18:59:11.746][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.756][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-10 18:59:11.756][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-10 18:59:11.757][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.758][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-10 18:59:11.758][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-10 18:59:11.758][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.759][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-10 18:59:11.760][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.761][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-10 18:59:11.761][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-10 18:59:11.761][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-10 18:59:11.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.762][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-10 18:59:11.762][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.763][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-10 18:59:11.764][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-10 18:59:11.764][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.765][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:11.765][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-10 18:59:11.765][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-10 18:59:11.766][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-10 18:59:11.766][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-10 18:59:11.766][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-10 18:59:11.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.767][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-10 18:59:11.767][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-10 18:59:11.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.768][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-10 18:59:11.769][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-10 18:59:11.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.769][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-10 18:59:11.770][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.771][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-10 18:59:11.771][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-10 18:59:11.771][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-10 18:59:11.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.772][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:11.772][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-10 18:59:11.778][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-10 18:59:11.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.779][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-10 18:59:11.779][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-10 18:59:11.780][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-10 18:59:11.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.781][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-10 18:59:11.781][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.782][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-10 18:59:11.782][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.783][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.783][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.783][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.783][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.784][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:11.784][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.784][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.784][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:11.785][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:11.786][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.787][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.787][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.788][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.788][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.789][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.789][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-10 18:59:11.789][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.790][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:11.790][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.790][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.790][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.791][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.791][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.791][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.792][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:11.792][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.792][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.792][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:11.793][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:11.794][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.794][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.794][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.795][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.795][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.795][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.796][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.796][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.796][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.796][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.797][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-10 18:59:11.797][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.798][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-10 18:59:11.798][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.798][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.798][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.799][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.799][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.799][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.799][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:11.800][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.800][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.800][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-10 18:59:11.801][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.801][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.801][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.801][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.802][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.802][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.802][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.803][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.803][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.803][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.803][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.804][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.804][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.804][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.804][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.805][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-10 18:59:11.805][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.805][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:11.806][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.806][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.806][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.806][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.807][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.807][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.807][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:11.807][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.808][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.808][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-10 18:59:11.808][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.809][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.809][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.809][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.809][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.813][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.814][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.814][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.814][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.815][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.815][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.815][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.815][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:11.816][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.841][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-10 18:59:11.842][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-10 18:59:11.842][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-10 18:59:11.843][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-10 18:59:11.843][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:11.843][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-10 18:59:11.844][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:11.844][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:11.845][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-10 18:59:11.845][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-10 18:59:11.845][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:11.846][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-10 18:59:11.846][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:11.847][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:11.847][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-10 18:59:11.847][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-10 18:59:11.848][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-10 18:59:11.848][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-10 18:59:11.848][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:11.849][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-10 18:59:11.849][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-10 18:59:11.850][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-10 18:59:11.853][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-10 18:59:11.857][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-10 18:59:11.858][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-10 18:59:11.863][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-10 18:59:11.869][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-10 18:59:11.870][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-10 18:59:11.870][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-10 18:59:11.870][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-10 18:59:11.871][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-10 18:59:11.871][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-10 18:59:11.872][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-10 18:59:11.872][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-10 18:59:11.872][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-10 18:59:11.873][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-10 18:59:11.873][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-10 18:59:11.874][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-10 18:59:11.874][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-10 18:59:11.874][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-10 18:59:11.875][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-10 18:59:11.875][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-10 18:59:11.875][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-10 18:59:11.876][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-10 18:59:11.876][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-10 18:59:11.877][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-10 18:59:11.877][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-10 18:59:11.877][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-10 18:59:11.878][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-10 18:59:11.878][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-10 18:59:11.879][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-10 18:59:11.879][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-10 18:59:11.879][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-10 18:59:11.880][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-10 18:59:11.880][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-10 18:59:11.880][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-10 18:59:11.881][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-10 18:59:11.881][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-10 18:59:11.882][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-10 18:59:11.882][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-10 18:59:11.882][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-10 18:59:11.883][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-10 18:59:11.883][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-10 18:59:11.883][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-10 18:59:11.884][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-10 18:59:11.884][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-10 18:59:11.885][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:11.885][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:11.885][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-10 18:59:11.886][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-10 18:59:11.886][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-10 18:59:11.886][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-10 18:59:11.887][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-10 18:59:11.887][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-10 18:59:11.888][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-10 18:59:11.888][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-10 18:59:11.888][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-10 18:59:11.889][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-10 18:59:11.889][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-10 18:59:11.889][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-10 18:59:11.890][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-10 18:59:11.890][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-10 18:59:11.891][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-10 18:59:11.891][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-10 18:59:11.892][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:11.892][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:11.892][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.893][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.922][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:11.923][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-10 18:59:11.923][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.923][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.924][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.924][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.925][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.925][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.925][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-10 18:59:11.925][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-10 18:59:11.926][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.926][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.926][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-10 18:59:11.926][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.927][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-10 18:59:11.928][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.928][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.928][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.929][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.929][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.929][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.929][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-10 18:59:11.929][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-10 18:59:11.930][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.930][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.930][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.930][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-10 18:59:11.930][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-10 18:59:11.931][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:11.931][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:11.932][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-10 18:59:11.932][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:11.932][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:11.933][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:11.934][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-10 18:59:11.936][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-10 18:59:11.936][biodb::testThat]
biodb.INFO [2025-11-10 18:59:11.936][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-10 18:59:11.937][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:11.937][biodb::testThat]
sched.DEBUG[2025-11-10 18:59:11.938][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-10 18:59:11.938][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.940][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-10 18:59:11.941][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:11.942][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:11.943][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:11.944][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-10 18:59:11.944][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-10 18:59:11.947][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-10 18:59:11.948][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-10 18:59:11.948][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-10 18:59:11.948][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:11.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:11.949][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:11.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:11.949][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-10 18:59:11.950][biodb::testContext]
biodb.INFO [2025-11-10 18:59:11.951][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:11.951][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-10 18:59:11.951][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-10 18:59:11.952][biodb::testContext]
biodb.INFO [2025-11-10 18:59:11.952][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:11.953][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:11.954][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:11.955][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-10 18:59:11.955][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.956][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-10 18:59:11.956][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.957][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-10 18:59:11.957][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.958][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-10 18:59:11.959][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-10 18:59:11.959][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.960][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-10 18:59:11.960][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-10 18:59:11.960][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.961][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-10 18:59:11.962][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.963][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-10 18:59:11.963][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-10 18:59:11.963][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-10 18:59:11.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.964][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-10 18:59:11.964][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.965][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-10 18:59:11.966][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-10 18:59:11.966][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-10 18:59:11.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.967][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:11.967][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-10 18:59:11.967][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-10 18:59:11.968][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-10 18:59:11.968][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-10 18:59:11.968][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-10 18:59:11.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.969][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-10 18:59:11.969][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-10 18:59:11.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.970][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-10 18:59:11.971][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-10 18:59:11.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.972][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-10 18:59:11.972][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-10 18:59:11.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.973][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-10 18:59:11.973][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-10 18:59:11.973][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-10 18:59:11.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.974][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-10 18:59:11.974][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-10 18:59:11.980][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-10 18:59:11.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.981][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-10 18:59:11.981][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-10 18:59:11.982][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-10 18:59:11.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:11.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:11.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:11.983][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-10 18:59:11.983][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.984][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-10 18:59:11.984][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.984][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.984][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.985][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.985][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.985][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.985][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:11.986][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.986][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.986][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:11.987][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:11.988][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.988][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.988][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.988][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.989][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.989][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.989][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.990][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.990][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.990][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.990][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.991][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-10 18:59:11.991][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.992][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:11.992][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.992][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:11.992][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.993][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.993][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.993][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.993][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:11.994][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:11.994][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.994][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-10 18:59:11.994][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:11.995][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.995][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.995][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:11.995][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:11.995][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:11.995][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-10 18:59:11.995][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-10 18:59:11.996][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:11.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.996][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.996][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:11.997][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:11.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:11.997][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:11.997][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.998][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:11.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:11.998][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:11.998][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:11.999][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-10 18:59:11.999][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:11.999][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-10 18:59:12.000][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.000][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:12.000][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.001][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.001][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.001][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.001][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-10 18:59:12.002][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:12.002][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.002][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-10 18:59:12.002][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:12.003][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.003][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.003][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.003][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:12.004][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:12.004][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:12.004][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:12.004][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:12.005][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:12.005][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.005][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.005][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:12.006][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:12.006][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.006][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.006][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-10 18:59:12.007][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.007][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-10 18:59:12.007][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.008][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:12.008][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.008][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.008][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.009][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.009][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-10 18:59:12.009][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:12.010][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.010][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-10 18:59:12.010][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:12.010][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.011][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.011][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.011][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-10 18:59:12.011][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:12.012][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:12.012][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:12.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:12.012][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:12.012][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.013][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.013][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:12.013][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:12.013][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.014][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-10 18:59:12.014][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:12.014][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.036][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-10 18:59:12.036][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-10 18:59:12.037][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-10 18:59:12.037][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-10 18:59:12.037][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:12.038][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-10 18:59:12.038][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:12.038][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:12.039][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-10 18:59:12.043][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-10 18:59:12.043][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:12.044][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-10 18:59:12.044][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-10 18:59:12.045][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-10 18:59:12.045][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-10 18:59:12.045][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-10 18:59:12.046][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-10 18:59:12.046][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-10 18:59:12.047][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:12.047][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-10 18:59:12.047][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-10 18:59:12.048][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-10 18:59:12.048][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-10 18:59:12.049][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-10 18:59:12.049][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-10 18:59:12.049][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-10 18:59:12.050][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-10 18:59:12.050][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-10 18:59:12.051][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-10 18:59:12.051][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-10 18:59:12.051][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-10 18:59:12.052][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-10 18:59:12.052][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-10 18:59:12.053][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-10 18:59:12.053][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-10 18:59:12.053][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-10 18:59:12.054][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-10 18:59:12.054][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-10 18:59:12.055][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-10 18:59:12.055][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-10 18:59:12.055][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-10 18:59:12.056][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-10 18:59:12.056][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-10 18:59:12.056][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-10 18:59:12.057][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-10 18:59:12.057][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-10 18:59:12.058][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-10 18:59:12.058][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-10 18:59:12.058][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-10 18:59:12.059][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-10 18:59:12.059][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-10 18:59:12.059][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-10 18:59:12.060][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-10 18:59:12.060][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-10 18:59:12.061][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-10 18:59:12.061][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-10 18:59:12.061][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-10 18:59:12.062][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-10 18:59:12.062][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-10 18:59:12.062][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-10 18:59:12.063][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-10 18:59:12.063][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-10 18:59:12.064][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-10 18:59:12.064][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-10 18:59:12.064][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-10 18:59:12.065][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-10 18:59:12.065][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:12.065][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:12.066][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-10 18:59:12.066][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-10 18:59:12.067][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-10 18:59:12.067][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-10 18:59:12.067][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-10 18:59:12.068][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-10 18:59:12.068][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-10 18:59:12.068][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-10 18:59:12.069][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-10 18:59:12.069][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-10 18:59:12.070][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-10 18:59:12.070][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-10 18:59:12.070][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-10 18:59:12.071][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-10 18:59:12.071][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-10 18:59:12.071][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-10 18:59:12.072][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-10 18:59:12.072][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-10 18:59:12.073][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.073][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-10 18:59:12.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-10 18:59:12.102][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-10 18:59:12.103][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-10 18:59:12.104][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.104][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.104][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.104][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-10 18:59:12.105][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.105][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.105][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.108][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-10 18:59:12.109][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-10 18:59:12.109][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-10 18:59:12.109][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-10 18:59:12.110][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-10 18:59:12.111][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-10 18:59:12.111][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-10 18:59:12.111][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-10 18:59:12.111][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-10 18:59:12.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:12.111][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:12.112][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-10 18:59:12.112][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-10 18:59:12.112][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-10 18:59:12.112][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-10 18:59:12.113][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-10 18:59:12.113][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-10 18:59:12.113][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-10 18:59:12.113][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-10 18:59:12.113][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-10 18:59:12.114][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-10 18:59:12.114][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-10 18:59:12.114][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-10 18:59:12.115][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-10 18:59:12.115][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-10 18:59:12.115][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-10 18:59:12.116][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-10 18:59:12.116][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-10 18:59:12.117][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-10 18:59:12.119][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-10 18:59:12.120][biodb::testThat]
biodb.INFO [2025-11-10 18:59:12.120][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-10 18:59:12.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-10 18:59:12.120][biodb::testThat]
sched.DEBUG[2025-11-10 18:59:12.121][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-10 18:59:12.122][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:12.124][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-10 18:59:12.124][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-10 18:59:12.125][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-10 18:59:12.126][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-10 18:59:12.127][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-10 18:59:12.127][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-10 18:59:12.129][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-10 18:59:12.132][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-10 18:59:12.132][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-10 18:59:12.135][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-10 18:59:12.136][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-10 18:59:12.136][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-10 18:59:12.137][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-10 18:59:12.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-10 18:59:12.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-10 18:59:12.142][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.142][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.143][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.144][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:12.144][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:12.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.145][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.145][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-10 18:59:12.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-10 18:59:12.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.146][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:12.147][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:12.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.147][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-10 18:59:12.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-10 18:59:12.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.149][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-10 18:59:12.149][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-10 18:59:12.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.149][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.150][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-10 18:59:12.150][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-10 18:59:12.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.151][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.151][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:12.152][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:12.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.152][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.153][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:12.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-10 18:59:12.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.154][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:12.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:12.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.155][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-10 18:59:12.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-10 18:59:12.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.156][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:12.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:12.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.157][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:12.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-10 18:59:12.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.158][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:12.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:12.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.160][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-10 18:59:12.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-10 18:59:12.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.162][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:12.162][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:12.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.163][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.163][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-10 18:59:12.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-10 18:59:12.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.164][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:12.167][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:12.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.167][ef$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.168][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-10 18:59:12.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-10 18:59:12.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:12.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:12.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:12.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:12.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-10 18:59:12.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-10 18:59:12.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-10 18:59:12.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-10 18:59:12.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-10 18:59:12.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-10 18:59:12.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-10 18:59:12.180][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-10 18:59:12.181][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-10 18:59:12.181][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-10 18:59:12.182][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-10 18:59:12.182][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-10 18:59:12.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-10 18:59:12.182][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-10 18:59:12.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-10 18:59:12.183][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-10 18:59:12.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.728   0.280   6.523

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7590.2561.111
ChebiEntry0.0930.0090.104